David Gfeller
@dgfeller.bsky.social
Fascinated by computational biology applied to cancer immune cell recognition
Very proud of the work of Dana Moreno about statistical modelling of CDR3 sequences in TCR repertoires: www.biorxiv.org/content/10.6....
Statistical modelling of CDR3 sequences provides robust quality control for TCR repertoire datasets
T-Cell Receptors (TCRs) show extensive sequence diversity across T cells. This diversity arises from different choices of V and J genes and from insertions and deletions at the V(D)J junction within t...
www.biorxiv.org
December 15, 2025 at 6:45 AM
Very proud of the work of Dana Moreno about statistical modelling of CDR3 sequences in TCR repertoires: www.biorxiv.org/content/10.6....
Nice results: rdcu.be/eTNVr. Looks like the decision to develop specific ML models of TCR-epitope interactions for each epitope was a reasonable choice.
Assessing data size requirements for training generalizable sequence-based TCR specificity models via pan-allelic MHC-I point-mutation ligandome evaluation
Scientific Reports - Assessing data size requirements for training generalizable sequence-based TCR specificity models via pan-allelic MHC-I point-mutation ligandome evaluation
rdcu.be
December 9, 2025 at 8:28 AM
Nice results: rdcu.be/eTNVr. Looks like the decision to develop specific ML models of TCR-epitope interactions for each epitope was a reasonable choice.
For those who followed the IMMREP25 competition and are interested in understanding how specificity was encoded for each epitope, check our TCR Motif Atlas IMMREP25 page: tcrmotifatlas.unil.ch/Browse_epito...
Model Motif Atlas
tcrmotifatlas.unil.ch
November 25, 2025 at 7:17 AM
For those who followed the IMMREP25 competition and are interested in understanding how specificity was encoded for each epitope, check our TCR Motif Atlas IMMREP25 page: tcrmotifatlas.unil.ch/Browse_epito...
Very happy to share our latest manuscript about TCR-epitope recognition specificity: www.biorxiv.org/content/10.1...
www.biorxiv.org
November 18, 2025 at 7:21 AM
Very happy to share our latest manuscript about TCR-epitope recognition specificity: www.biorxiv.org/content/10.1...
Reposted by David Gfeller
Cool paper on scRNA T cell annotation. However, a note for ProjecTILs users: I wouldn’t rely on the ProjecTILs benchmark in this work, as it was run using a mouse reference map to classify human T cells (even though human CD4/CD8 T cell maps are available github.com/carmonalab/P...)
October 31, 2025 at 1:01 PM
Cool paper on scRNA T cell annotation. However, a note for ProjecTILs users: I wouldn’t rely on the ProjecTILs benchmark in this work, as it was run using a mouse reference map to classify human T cells (even though human CD4/CD8 T cell maps are available github.com/carmonalab/P...)
Interested in unraveling specificity in epitope recognition by TCRs and KIRs in the context of graft-versus-host diseases. We have an open post-doc position in the group. Do not hesitate to share the word.
July 15, 2025 at 3:14 PM
Interested in unraveling specificity in epitope recognition by TCRs and KIRs in the context of graft-versus-host diseases. We have an open post-doc position in the group. Do not hesitate to share the word.
Happy to share the great work of Giancarlo Croce: Phage display enables machine learning discovery of cancer antigen–specific TCRs | Science Advances www.science.org/doi/10.1126/...
Phage display enables machine learning discovery of cancer antigen–specific TCRs
Phage display and machine learning join forces to identify cancer-specific TCRs.
www.science.org
June 11, 2025 at 8:12 PM
Happy to share the great work of Giancarlo Croce: Phage display enables machine learning discovery of cancer antigen–specific TCRs | Science Advances www.science.org/doi/10.1126/...
Call for abstract open
at BC2 2025: bc2.ch/talks-poster...
at BC2 2025: bc2.ch/talks-poster...
Call for talks and posters
The [BC]2 Basel Computational Biology Conference is Switzerland's main event in the domain of Computational Biology and one of the major events of its kind in Europe. The conference unites scientists ...
bc2.ch
January 10, 2025 at 10:05 AM
Call for abstract open
at BC2 2025: bc2.ch/talks-poster...
at BC2 2025: bc2.ch/talks-poster...
Matei Teleman's SuperSpot paper out in Bioinformatics: academic.oup.com/bioinformati...
SuperSpot: Coarse Graining Spatial Transcriptomics Data into Metaspots
AbstractSummary. Spatial Transcriptomics is revolutionizing our ability to phenotypically characterize complex biological tissues and decipher cellular nic
academic.oup.com
December 12, 2024 at 9:03 AM
Matei Teleman's SuperSpot paper out in Bioinformatics: academic.oup.com/bioinformati...